3ZNR Hydrolase date Feb 15, 2013
title Hdac7 Bound With Inhibitor Tmp269
authors M.Lobera, K.Madauss, D.Pohlhaus, R.Trump, M.Nolan
compound source
Molecule: Histone Deacetylase 7
Chain: A, B, C
Fragment: Catalytic Domain, Residues 482-903
Synonym: Hdac7, Hd7, Histone Deacetylase 7a, Hd7a
Ec: 3.5.1.98
Engineered: Yes
Other_details: Ligand Is A Tfmo Inhibitor
Organism_scientific: Homo Sapiens
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 32
R_factor 0.21235 R_Free 0.24102
crystal
cell
length a length b length c angle alpha angle beta angle gamma
81.393 81.393 149.265 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.40 Å
ligand K, NU9, ZN enzyme Hydrolase E.C.3.5.1.98 BRENDA
Primary referenceSelective class IIa histone deacetylase inhibition via a nonchelating zinc-binding group., Lobera M, Madauss KP, Pohlhaus DT, Wright QG, Trocha M, Schmidt DR, Baloglu E, Trump RP, Head MS, Hofmann GA, Murray-Thompson M, Schwartz B, Chakravorty S, Wu Z, Mander PK, Kruidenier L, Reid RA, Burkhart W, Turunen BJ, Rong JX, Wagner C, Moyer MB, Wells C, Hong X, Moore JT, Williams JD, Soler D, Ghosh S, Nolan MA, Nat Chem Biol. 2013 Mar 24. doi: 10.1038/nchembio.1223. PMID:23524983
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (173 Kb) [Save to disk]
  • Biological Unit Coordinates (3znr.pdb1.gz) 58 Kb
  • Biological Unit Coordinates (3znr.pdb2.gz) 60 Kb
  • Biological Unit Coordinates (3znr.pdb3.gz) 56 Kb
  • LPC: Ligand-Protein Contacts for 3ZNR
  • CSU: Contacts of Structural Units for 3ZNR
  • Structure Factors (617 Kb)
  • Retrieve 3ZNR in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3ZNR from S2C, [Save to disk]
  • Re-refined 3znr structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3ZNR in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
  • Visual 3D analysis of 3ZNR
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 3ZNR, from MSDmotif at EBI
  • Fold representative 3znr from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3znr_C] [3znr] [3znr_B] [3znr_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3ZNR
  • Community annotation for 3ZNR at PDBWiki (http://pdbwiki.org)

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